X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
Temperature 277.0
Details 25-32% PEG550 MME or PEG600, 60-100mM HEPES or Na acetate, pH 6.5-8.0, VAPOR DIFFUSION, HANGING DROP, temperature 277K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 78.48 α = 90
b = 109.84 β = 90
c = 227.88 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 210 -- 2004-03-05
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE ID14-4 0.975 ESRF ID14-4

Data Collection

Overall
Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym I (Observed) Net I Over Average Sigma (I) Redundancy Number Reflections (All) Number Reflections (Observed) Observed Criterion Sigma (F) Observed Criterion Sigma (I) B (Isotropic) From Wilson Plot
2.15 30 96.9 0.062 -- -- 3.8 -- 101293 0.0 0.0 35.1
High Resolution Shell
Resolution (High) Resolution (Low) Percent Possible (All) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All)
2.15 2.25 96.9 0.383 -- 3.4 3.1 --

Refinement

Statistics
Structure Solution Method Refinement High Resolution Refinement Low Resolution Cut-off Sigma (I) Cut-off Sigma (F) Number of Reflections (All) Number of Reflections (Observed) Number of Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Factor (Observed) R-Work R-Free R-Free Selection Details
FOURIER SYNTHESIS 2.15 30.0 -- -- -- 98802 2062 96.59 -- 0.17744 0.17681 0.20982 RANDOM
High Resolution Shell
Refinement method Shell Resolution (High) Shell Resolution (Low) # of Reflections (Observed) # of Reflections (R-Free) # of Reflections (R-Work) R-Factor (R-Work) R-Factor (R-Free) R-Factor (R-Free Error) Percent Reflections (Observed)
X Ray Diffraction 2.15 2.206 -- 122 5280 0.233 0.307 -- 76.02
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 43.96
Anisotropic B[1][1] 2.93
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 3.07
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -5.99
RMS Deviations
Key Refinement Restraint Deviation
r_bond_refined_d 0.01
r_mcangle_it 0.937
r_angle_other_deg 0.913
r_dihedral_angle_3_deg 14.339
r_angle_refined_deg 1.231
r_symmetry_vdw_other 0.25
r_bond_other_d 0.001
r_nbtor_other 0.084
r_nbd_other 0.195
r_gen_planes_refined 0.004
r_mcbond_other 0.111
r_mcbond_it 0.636
r_nbtor_refined 0.178
r_nbd_refined 0.199
r_xyhbond_nbd_refined 0.164
r_symmetry_hbond_refined 0.154
r_gen_planes_other 0.001
r_dihedral_angle_1_deg 6.198
r_chiral_restr 0.074
r_dihedral_angle_4_deg 16.957
r_scbond_it 1.452
r_symmetry_vdw_refined 0.124
r_scangle_it 2.321
r_dihedral_angle_2_deg 33.743
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 8334
Nucleic Acid Atoms 0
Heterogen Atoms 143
Solvent Atoms 886

Software

Software
Software Name Purpose
REFMAC refinement version: 5.2.0019
ADSC data collection
DENZO data reduction
SCALEPACK data scaling